Package Bio :: Module ExPASy
[hide private]
[frames] | no frames]

Module ExPASy

source code

This module provides code to access resources at ExPASy over the WWW. http://www.expasy.ch/

Functions: get_prodoc_entry Interface to the get-prodoc-entry CGI script. get_prosite_entry Interface to the get-prosite-entry CGI script. get_prosite_raw Interface to the get-prosite-raw CGI script. get_sprot_raw Interface to the get-sprot-raw CGI script. sprot_search_ful Interface to the sprot-search-ful CGI script. sprot_search_de Interface to the sprot-search-de CGI script. scanprosite1 Interface to the scanprosite CGI script.

Functions [hide private]
handle
get_prodoc_entry(id, cgi='http://www.expasy.ch/cgi-bin/get-prodoc-entry')
Get a handle to a PRODOC entry at ExPASy in HTML format.
source code
handle
get_prosite_entry(id, cgi='http://www.expasy.ch/cgi-bin/get-prosite-entry')
Get a handle to a PROSITE entry at ExPASy in HTML format.
source code
handle
get_prosite_raw(id, cgi='http://www.expasy.ch/cgi-bin/get-prosite-raw.pl')
Get a handle to a raw PROSITE or PRODOC entry at ExPASy.
source code
handle
get_sprot_raw(id, cgi='http://www.expasy.ch/cgi-bin/get-sprot-raw.pl')
Get a handle to a raw SwissProt entry at ExPASy.
source code
handle
sprot_search_ful(text, make_wild=None, swissprot=1, trembl=None, cgi='http://www.expasy.ch/cgi-bin/sprot-search-ful')
Search SwissProt by full text.
source code
handle
sprot_search_de(text, swissprot=1, trembl=None, cgi='http://www.expasy.ch/cgi-bin/sprot-search-de')
Search SwissProt by name, description, gene name, species, or organelle.
source code
handle
scanprosite1(seq=None, id=None, exclude_frequent=None, cgi='http://www.expasy.org/cgi-bin/scanprosite/scanprosite?1')
Scan a sequence for a Prosite pattern.
source code
Function Details [hide private]

get_prodoc_entry(id, cgi='http://www.expasy.ch/cgi-bin/get-prodoc-entry')

source code 

Get a handle to a PRODOC entry at ExPASy in HTML format.

For a non-existing key XXX, ExPASy returns an HTML-formatted page containing this line: 'There is no PROSITE documentation entry XXX. Please try again.'

Returns: handle

get_prosite_entry(id, cgi='http://www.expasy.ch/cgi-bin/get-prosite-entry')

source code 

Get a handle to a PROSITE entry at ExPASy in HTML format.

For a non-existing key XXX, ExPASy returns an HTML-formatted page containing this line: 'There is currently no PROSITE entry for XXX. Please try again.'

Returns: handle

get_prosite_raw(id, cgi='http://www.expasy.ch/cgi-bin/get-prosite-raw.pl')

source code 

Get a handle to a raw PROSITE or PRODOC entry at ExPASy.

For a non-existing key, ExPASy returns nothing.

Returns: handle

get_sprot_raw(id, cgi='http://www.expasy.ch/cgi-bin/get-sprot-raw.pl')

source code 

Get a handle to a raw SwissProt entry at ExPASy.

For a non-existing key XXX, ExPASy returns an HTML-formatted page containing this line: 'XXX is not a valid identifier.'

Returns: handle

scanprosite1(seq=None, id=None, exclude_frequent=None, cgi='http://www.expasy.org/cgi-bin/scanprosite/scanprosite?1')

source code 

Scan a sequence for a Prosite pattern. Either a sequence or a SwissProt/ trEMBL sequence can be passed. exclude_frequent specifies whether to exclude patterns with high probability.

Returns: handle